Trojan scan is a simple shell script that allows for simple but relatively effective checking for trojans, rootkits and other malware that may be using your server and network for unwanted (and possibly illegal) purposes. It works by listing all processes that use the Internet with the lsof command (using -Pni flags). This list is then transformed into signatures in the form of process_name:port_number:user. These signatures then are matched against the allowed process defined in the configuration. If any signatures of running processes are found that do not match the allowed signatures, an email report is sent including ps, ls, and optional lsof output.
ProteomeCommons.org IO Framework is a proper Java framework for handling spectra and peak lists. The framework can read and write to a number of different spectra and peak list formats, and it provides a simple, intuitive Java object model for working with spectra or peak lists. All classes support two methods of handling peak list and spectrum data: in-memory or stream. The goal of this framework is to support all the popular MS and MSMS data formats, and to eliminate any time or effort involved in figuring out how to read and write peak list or spectrum files.