If you are on a shared server and dont know how to change your php configuration you might want to check this article also.

But enough talk and lets get right into it. I will write the configuration name, the recommended setting and how this helps your application.

short_open_tag = Off

This will turn off short tags ( <? …. ?> ) and have the php engine one problem less to worry about.

asp_tags = Off

Do not use ASP like tags: <% echo “hello world”; %>

memory_limit = 32M

This is one configuration that you might need to tweak once in a while. But for start it is better to set it to a lower value and adjusting it when you need it. This will help you keep track of your aplication memory usage.
An article about memory usage you can find here.

register_long_array = Off

This will tells PHP to not register the deprecated long $HTTP_*_VARS type predefined variables. The default value is On. Since almost nobody ever uses them any more ( unless they have some compatibilty problems with old scripts, and they need them on ) it’s recommended to turn them off, for performance reasons. Instead, use the superglobal arrays, like $_GET.

This directive became available in PHP 5.0.0 and was dropped in PHP 6.0.0.

register_argc_argv = Off

This is more or less the same with register_long_arrays referring mostly to GET informations so it should be set to Off as well.

auto_globals_jit = On

This makes php stop generating the SERVER and ENV variables at script start ( default behaver ) and generating them when needed (Just In Time). These should help performance by cutting down the memory used by your scripts.
For this to work you need to have register_globals, register_long_arrays, and register_argc_argv disabled.
As an inside info : i tried this on a server .. .and it didn’t seem to create any SERVER or ENV variables, but i guess it was the server configuration because on a different server it worked .

magic_quotes_gpc

From my experience having this on can be a real pain in the [****]. When this is on, all ‘ (single-quote), ” (double quote), \ (backslash) and NUL’s are escaped with a backslash automatically. Why this is bad ? because you dont have a control over it. For example you use a mysql wrapper for youre database interactions that already has an escape function, this will make your values double escaped, and you endup after a few submits with a bunch of backslashes. So better have it off and do your own escaping, and maybe use a cleaning function to prevent SQL Injection ( more info here )

always_populate_raw_post_data = Off

Raw Post data is one of the more advanced knowledge, so if you dont use it, relief php of it concern and set always_populate_raw_post_data = Off.

Requirements: Root access to WHM
=========================================
Below is a list of items inside of WHM/cPanel that should be changed to secure your server.

Goto Server Setup =>> Tweak Settings
Check the following items…

Under Domains
Prevent users from parking/adding on common internet domains. (ie hotmail.com, aol.com)

Under Mail
Attempt to prevent pop3 connection floods
Default catch-all/default address behavior for new accounts – blackhole
(according to ELIX – set this to FAIL, which is what I am going to do to reduce server load)

Under System
Use jailshell as the default shell for all new accounts and modified accounts

Goto Server Setup =>> Tweak Security
Enable php open_basedir Protection
Enable mod_userdir Protection
Disabled Compilers for unprivileged users.

Goto Server Setup =>> Manage Wheel Group Users
Remove all users except for root and your main account from the wheel group.

Goto Server Setup =>> Shell Fork Bomb Protection
Enable Shell Fork Bomb/Memory Protection

When setting up Feature Limits for resellers in Resellers =>> Reseller Center, under Privileges always disable Allow Creation of Packages with Shell Access and enable Never allow creation of accounts with shell access; under Root Access disable All Features.

Goto Service Configuration =>> FTP Configuration
Disable Anonymous FTP

Goto Account Functions =>> Manage Shell Access
Disable Shell Access for all users (except yourself)

Goto Mysql =>> MySQL Root Password
Change root password for MySQL

Goto Security and run Quick Security Scan and Scan for Trojan Horses often. The following and similar items are not Trojans:
/sbin/depmod
/sbin/insmod
/sbin/insmod.static
/sbin/modinfo
/sbin/modprobe
/sbin/rmmod

=========================================
More Security Measures
=========================================
1) Update OS, Apache and CPanel to the latest stable versions.
This can be done from WHM/CPanel.

2) Use The Latest Software
Keep the OS and 3rd party software up to date. Always!
CPanel itself can be updated from the root WHM.

3) Change Passwords
Change the root passwords at least once a month and try to make them hard to guess. Yes it’s a pain to have to keep remembering them, but it’s better than being hacked.

4) Watch The Logs
Install something like logwatch to keep an eye on your system logs. This will extract anything ‘interesting’ from the logs and e-mail to you on a daily basis.
Logwatch can be found at: http://www.logwatch.org
Install instructions here.

5) Avoid CPanel Demo Mode
Switch it off via WHM Account Functions => Disable or Enable Demo Mode.

6) Jail All Users
Via WHM Account Functions => Manage Shell Access => Jail All Users.
Better still never allow shell access to anyone – no exceptions.

7) Set The MySQL Root Password
This can be done in CPanel from the root WHM Server Setup -> Set MySQL Root Password.
Make it different to your root password!

Tweak Security
From the root WHM, Server Setup -> Tweak Security, you will most likely want to enable:
- php open_basedir Tweak.
- SMTP tweak.
You may want to enable:
- mod_userdir Tweak. But that will disable domain preview.

9) Use SuExec
From root WHM, Server Setup -> Enable/Disable SuExec. This is CPanel’s decription of what it does:
“suexec allows cgi scripts to run with the user’s id. It will also make it easier to track which user has sent out an email. If suexec is not enabled, all cgi scripts will run as nobody. “
Even if you don’t use phpsuexec (which often causes more problems), SuExec should be considered.

10) Use PHPSuExec
This needs to built into Apache (Software -> Update Apache from the root WHM) and does the same as SuExec but for PHP scripts.
Wisth PHPSuExec enabled, you users will have to make sure that all their PHP files have permissions no greater than 0755 and that their htaccess files contain no PHP directives.

=========================================
Requirements: Root access to VPS
=========================================

=========================================
Checking for formmail
=========================================

Form mail is used by hackers to send out spam email, by relay and injection methods. If you are using matts script or a version of it, you may be in jeopardy.

Command to find pesky form mails:
find / -name “[Ff]orm[mM]ai*”

CGIemail is also a security risk:
find / -name “[Cc]giemai*”

Command to disable form mails:
chmod a-rwx /path/to/filename
(a-rwx translates to all types, no read, write or execute permissions).

(this disables all form mail)

If a client or someone on your vps installs form mail, you will have to let them know you are disabling their script and give them an alternative.

=========================================
Root kit checker – http://www.chkrootkit.org/
=========================================

Check for root kits and even set a root kit on a cron job. This will show you if anyone has compromised your root. Always update chrootkit to get the latest root kit checker. Hackers and spammers will try to find insecure upload forms on your box and then with injection methods, try to upload the root kit on your server. If he can run it, it will modify *alot* of files, possibly causing you to have to reinstall.

To install chrootkit, SSH into server and login as root.
At command prompt type:

cd /root/
wget ftp://ftp.pangeia.com.br/pub/seg/pac/chkrootkit.tar.gz
tar xvzf chkrootkit.tar.gz
cd chkrootkit-0.44
make sense

To run chkrootkit

At command prompt type:
/root/chkrootkit-0.44/chkrootkit

Make sure you run it on a regular basis, perhaps including it in a cron job.

Execution

I use these three commands the most.
./chkrootkit
./chkrootkit -q
./chkrootkit -x | more

=========================================
Install a root breach DETECTOR and EMAIL WARNING
=========================================

If someone does happen to get root, be warned quickly by installing a detector and warning at your box. You will at least get the hackers/spammers ip address and be warned someone is in there.

Server e-mail everytime someone logs in as root

To have the server e-mail you everytime someone logs in as root, SSH into server and login as root.

At command prompt type:
pico .bash_profile

Scroll down to the end of the file and add the following line:

echo ‘ALERT – Root Shell Access on:’ `date` `who` | mail -s “Alert: Root Access from `who | awk ‘{print $6}’`” your@email.com

Save and exit.

Set an SSH Legal Message

To an SSH legal message, SSH into server and login as root.

At command prompt type:
pico /etc/motd

Enter your message, save and exit.
Note: I use the following message…

ALERT! You are entering a secured area! Your IP and login information
have been recorded. System administration has been notified.
This system is restricted to authorized access only. All activities on
this system are recorded and logged. Unauthorized access will be fully
investigated and reported to the appropriate law enforcement agencies.

=========================================
More Security Measures
=========================================

These are measures that can be taken to secure your server, with SSH access.

1) Update OS, Apache and CPanel to the latest stable versions.
This can be done from WHM/CPanel.

=========================================
Restrict SSH Access
=========================================
To restrict and secure SSH access, bind sshd to a single IP that is different than the main IP to the server, and on a different port than port 22.

SSH into server and login as root.
Note: You can download Putty by Clicking Here (http://www.chiark.greenend.org.uk/~s…/download.html). It’s a clean running application that will not require installation on Windows-boxes.

At command prompt type:
pico /etc/ssh/sshd_config

Scroll down to the section of the file that looks like this:
#Port 22
#Protocol 2, 1
#ListenAddress 0.0.0.0
#ListenAddress ::

Uncomment and change
#Port 22
to look like
Port 5678 (choose your own 4 to 5 digit port number (49151 is the highest port number AND do not use 5678 lol )

Uncomment and change
#Protocol 2, 1
to look like
Protocol 2

Uncomment and change
#ListenAddress 0.0.0.0
to look like
ListenAddress 123.123.123.15 (use one of your own IP Addresses that has been assigned to your server)

Note 1: If you would like to disable direct Root Login, scroll down until you find
#PermitRootLogin yes
and uncomment it and make it look like
PermitRootLogin no

Save by pressing Ctrl o on your keyboard, and then exit by pressing Ctrl x on your keyboard.

Note 2: You can also create a custome nameserver specifically for your new SSH IP address. Just create one called something like ssh.xyz.com or whatever. Be sure to add an A address to your zone file for the new nameserver.

Now restart SSH
At command prompt type:
/etc/rc.d/init.d/sshd restart

Exit out of SSH, and then re-login to SSH using the new IP or nameserver, and the new port.

Note: If you should have any problems, just Telnet into your server, fix the problem, then SSH in again. Telnet is a very unsecure protocol, so change your root password after you use it.

After SSH has been redirected, disable telnet.
=========================================
Disable Telnet
=========================================
To disable telnet, SSH into server and login as root.
At command prompt type: pico -w /etc/xinetd.d/telnet
change disable = no to disable = yes
Save and Exit
At command prompt type: /etc/init.d/xinetd restart

=========================================
Disable Shell Accounts
=========================================
To disable any shell accounts hosted on your server SSH into server and login as root.
At command prompt type: locate shell.php
Also check for:
locate irc
locate eggdrop
locate bnc
locate BNC
locate ptlink
locate BitchX
locate guardservices
locate psyBNC
locate .rhosts

Note: There will be several listings that will be OS/CPanel related. Examples are
/home/cpapachebuild/buildapache/php-4.3.1/ext/ircg
/usr/local/cpanel/etc/sym/eggdrop.sym
/usr/local/cpanel/etc/sym/bnc.sym
/usr/local/cpanel/etc/sym/psyBNC.sym
/usr/local/cpanel/etc/sym/ptlink.sym
/usr/lib/libncurses.so
/usr/lib/libncurses.a
etc.

=========================================
Disable identification output for Apache
=========================================
(do this to hide version numbers from potentional hackers)

To disable the version output for proftp, SSH into server and login as root.
At command prompt type: pico /etc/httpd/conf/httpd.conf

Scroll (way) down and change the following line to
ServerSignature Off

Restart Apache
At command prompt type: /etc/rc.d/init.d/httpd restart

=========================================
Install BFD (Brute Force Detection – optional)
=========================================

To install BFD, SSH into server and login as root.

At command prompt type:
cd /root/
wget http://www.rfxnetworks.com/downloads/bfd-current.tar.gz
tar -xvzf bfd-current.tar.gz
cd bfd-0.4
./install.sh

After BFD has been installed, you need to edit the configuration file.

At command prompt type:
pico /usr/local/bfd/conf.bfd

Under Enable brute force hack attempt alerts:
Find
ALERT_USR=”0″
and change it to
ALERT_USR=”1″

Find
EMAIL_USR=”root”
and change it to
EMAIL_USR=”your@email.com”

Save the changes then exit.

To start BFD

At command prompt type:
/usr/local/sbin/bfd -s

Modify LogWatch
Logwatch is a customizable log analysis system. It parses through your system’s logs for a given period of time and creates a report analyzing areas that you specify, in as much detail as you require. Logwatch is already installed on most CPanel servers.

To modify LogWatch, SSH into server and login as root.

At command prompt type:
pico -w /etc/log.d/conf/logwatch.conf

Scroll down to
MailTo = root
and change to
Mailto = your@email.com
Note: Set the e-mail address to an offsite account incase you get hacked.

Now scroll down to
Detail = Low
Change that to Medium, or High…
Detail = 5 or Detail = 10
Note: High will give you more detailed logs with all actions.

Save and exit.

A number of suggestions to improve system security. Some of this is specific to CPanel, but much can be applied to most Linux systems.
————————————————–
Use The Latest Software
Keep the OS and 3rd party software up to date. Always!
CPanel itself can be updated from the root WHM.
————————————————–
Change Passwords
Change the root passwords at least once a month and try to make them hard to guess. Yes it’s a pain to have to keep remembering them, but it’s better than being hacked.

————————————————–
Set Up A More Secure SSH Environment As described here.
————————————————–
Disable Telnet
1. Type: pico -w /etc/xinetd.d/telnet
2. Change the disable = no line to disable = yes.
3. Hit CTRL+X press y and then enter to save the file.
4. Restart xinted with: /etc/rc.d/init.d/xinetd restart
Also, add the following line to /etc/deny.hosts to flag Telnet access attempts as ‘emergency’ messages.

in.telnetd : ALL : severity emerg

————————————————–
Disable Unnecessary Ports (optional)
First backup the file that contains your list of ports with:
cp /etc/services /etc/services.original
Now configure /etc/services so that it only has the ports you need in it. This will match the ports enabled in your firewall.
On a typical CPanel system it would look something like this:
tcpmux 1/tcp # TCP port service multiplexer
echo 7/tcp
echo 7/udp
ftp-data 20/tcp
ftp 21/tcp
ssh 22/tcp # SSH Remote Login Protocol
smtp 25/tcp mail
domain 53/tcp # name-domain server
domain 53/udp
http 80/tcp www www-http # WorldWideWeb HTTP
pop3 110/tcp pop-3 # POP version 3
imap 143/tcp imap2 # Interim Mail Access Proto v2
https 443/tcp # MCom
smtps 465/tcp # SMTP over SSL (TLS)
syslog 514/udp
rndc 953/tcp # rndc control sockets (BIND 9)
rndc 953/udp # rndc control sockets (BIND 9)
imaps 993/tcp # IMAP over SSL
pop3s 995/tcp # POP-3 over SSL
cpanel 2082/tcp
cpanels 2083/tcp
whm 2086/tcp
whms 2087/tcp
webmail 2095/tcp
webmails 2096/tcp
mysql 3306/tcp # MySQL
?>
Additional ports are controlled by /etc/rpc. These aren’t generally needed, so get shot of that file with: mv /etc/rpc /etc/rpc-moved
————————————————–
Watch The Logs
Install something like logwatch to keep an eye on your system logs. This will extract anything ‘interesting’ from the logs and e-mail to you on a daily basis.
Logwatch can be found at: http://www.logwatch.org
Install instructions here.
————————————————–
Avoid CPanel Demo Mode
Switch it off via WHM Account Functions => Disable or Enable Demo Mode.
————————————————–
Jail All Users
Via WHM Account Functions => Manage Shell Access => Jail All Users.
Better still never allow shell access to anyone – no exceptions.
————————————————–
Immediate Notification Of Specific Attackers
If you need immediate notification of a specific attacker (TCPWrapped services only), add the following to /etc/hosts.deny

ALL : nnn.nnn.nnn.nnn : spawn /bin/ ‘date’ %c %d | mail -s”Access attempt by nnn.nnn.nnn.nnn on for hostname” notify@mydomain.com
Replacing nnn.nnn.nnn.nnn with the attacker’s IP address.
Replacing hostname with your hostname.
Replacing notify@mydomain.com with your e-mail address.
This will deny access to the attacker and e-mail the sysadmin about the access attempt.
————————————————–
Check Open Ports
From time to time it’s worth checking which ports are open to the outside world. This can be done with:
nmap -sT -O localhost
If nmap isn’t installed, it can be selected from root WHM’s Install an RPM option.
————————————————–
Disable Compilers
This will prevent hackers from compiling worms, root kits and the like on your machine.
To disable them, do the following:

chmod 000 /usr/bin/perlcc
chmod 000 /usr/bin/byacc
chmod 000 /usr/bin/yacc
chmod 000 /usr/bin/bcc
chmod 000 /usr/bin/kgcc
chmod 000 /usr/bin/cc
chmod 000 /usr/bin/gcc
chmod 000 /usr/bin/i386*cc
chmod 000 /usr/bin/*c++
chmod 000 /usr/bin/*g++
chmod 000 /usr/lib/bcc /usr/lib/bcc/bcc-cc1
chmod 000 /usr/i386-glibc21-linux/lib/gcc-lib/i386-redhat-linux/2.96/cc1

You will need to enable them again when you need to perform system updates. To do this, run:

chmod 755 /usr/bin/perlcc
chmod 755 /usr/bin/byacc
chmod 755 /usr/bin/yacc
chmod 755 /usr/bin/bcc
chmod 755 /usr/bin/kgcc
chmod 755 /usr/bin/cc
chmod 755 /usr/bin/gcc
chmod 755 /usr/bin/i386*cc
chmod 755 /usr/bin/*c++
chmod 755 /usr/bin/*g++
chmod 755 /usr/lib/bcc /usr/lib/bcc/bcc-cc1
chmod 755 /usr/i386-glibc21-linux/lib/gcc-lib/i386-redhat-linux/2.96/cc1

————————————————–
Obfuscate The Apache Version Number
1. Type: pico /etc/httpd/conf/httpd.conf
2. Change the line that begins ServerSignature to:

ServerSignature Off

3. Add a line underneath that which reads:

ServerTokens ProductOnly

4. Hit CTRL+X, they y, the enter to save the file.
5. Restart Apache with: /etc/rc.d/init.d/httpd restart
——————–