Doodle is a desktop search engine for Linux. It searches your hard drive for files using pattern matching on meta-data. It extracts file-format specific meta-data using libextractor and builds a suffix tree to index the files. The index can then be searched rapidly. It is similar to locate, but can take advantage of information such as ID3 tags. It is possible to do full-text indexing using the appropriate libextractor plugins. It also supports using FAM to keep the database up-to-date.
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.