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Web servers can be protected from threats in many ways. Firstly, we recommend that the administrator keeps an inventory of what applications are on the web server and maintains patch levels for all of them. A host-based Intrusion Detection System, such as mod_security for the Apache web server may be used to block certain common attack vectors, such as "wget" and "curl" appearing in GET and POST requests. This will not provide complete protection from remote code inclusion attacks in particular, but will block many common attacks. If the attacker can include arbitrary code in the running application, they will be able to evade most keyword filters. Alternatively, an application proxy can be deployed in front of the web server to filter out these types of malicious requests. A Host Intrusion Detection System (HIDS) program such as Tripwire may be used to monitor the integrity of critical system files.
Correct configuration of web servers such as Apache and scripting languages such as PHP is also crucial. We mentioned register_globals earlier which allows an attacker to set variables which can cause problems if the developer has not specifically initialized them. The allow_url_fopen configuration directive should be disabled if possible as this prevents remote code-inclusion attacks. The Open Web Application Security Project provides further details on securing web servers and applications.
We also recommend that a Network Intrusion Detection System is used which should alert the administrator to events such as connections from web servers to an IRC channel outside the organisation, the port-scanning activity that will be associated with some of the worms and scanning tools, and possibly the increase in traffic that may occur if the server is sending spam email or hosting a phishing web site. Lastly, the administrators should be responsive to the postmaster and abuse email addresses at their domain, which often provide rapid warning of incidents in progress.