Pike ScriptRunner allows you to run scripts written in Pike under any FastCGI-enabled Web server. It provides request parsing and I/O handling, enabling you to get right to the task of writing your code. It is a dynamic object-oriented language with a C-like syntax and a number of features that make it desirable for rapid prototyping and deployment of Web applications.
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.