Spinneret is a structured storage engine that can be thought of as an extended tuple storage system. It takes the best aspects of relational, object, and hierarchical databases and throws away the dead weight associated with those technologies. The benefit of Spinneret is that its data model is incredibly flexible, allowing it to expose its underlying data in any number of ways. It operates similar to an object database, but without hard ties to an originating language, and can also behave like a relational database without the burden of complex joins.
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.
ProteomeCommons.org Java Analysis Framework is a framework for referencing common mass spectrometry data such as atoms and residues. This framework provides a programmer with an easy-to-use library for writing programs that rely on common mass spectrometry data. The framework also contains utilities such as an isotope calculator and a reference for residue abbreviations.
Puppet lets you centrally manage every important aspect of your system using a cross-platform specification language that manages all the separate elements normally aggregated in different files, including users, cron jobs, and hosts, along with obviously discrete elements like packages, services, and files. Its simple declarative specification language provides powerful classing abilities for drawing out the similarities between hosts while allowing them to be as specific as necessary, and it handles dependency and prerequisite relationships between objects clearly and explicitly.
Nexenta is a complete GNU-based operating system built on top of the OpenSolaris kernel and runtime. The Debian system is used for software distribution and packaging to glue the numerous pieces together. However, Nexenta is not currently part of the Debian Project, nor are its packages present in the Debian database. It includes Apache, MySQL, Perl, Python, PHP, Firefox, Evolution, a software update manager, Synaptic package manager, Gaim, Abiword, administration and development utilities, editors, graphics, GNOME, interpreters, libraries, and much more.
jrawio is a Service Provider Implementation for the Java Image I/O API that provides the capability to read images stored in a "camera raw" format. It supports various formats from the major camera manufacturers (e.g. NEF, CRW, CR2, PEF, SRF, MRW) as well as Adobe Digital Negative Format (DNG). It is made of pure Java code and does not require any native library.