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The JAVE (Java Audio Video Encoder) library is Java wrapper on the ffmpeg project. Developers can take take advantage of JAVE2 to transcode audio and video files from a format to another. In example you can transcode an AVI file to a MPEG one, you can change a DivX video stream into a (youtube like) Flash FLV one, you can convert a WAV audio file to a MP3 or a Ogg Vorbis one, you can separate and transcode audio and video tracks, you can resize videos, changing their sizes and proportions and so on. Many other formats, containers and operations are supported by JAVE2.

ZooKeeper is a centralized service for maintaining configuration information, naming, providing distributed synchronization, and providing group services. All of these kinds of services are used in some form or another by distributed applications. Each time they are implemented there is a lot of work that goes into fixing the bugs and race conditions that are inevitable. Because of the difficulty of implementing these kinds of services, applications initially usually skimp on them ,which make them brittle in the presence of change and difficult to manage. Even when done correctly, different implementations of these services lead to management complexity when the applications are deployed.

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All Roads Lead to ROME. ROME is a set of Atom/RSS Java utilities that make it easy to work in Java with most syndication formats. Today it accepts all flavors of RSS (0.90, 0.91, 0.92, 0.93, 0.94, 1.0 and 2.0), Atom 0.3 and Atom 1.0 feeds. Rome includes a set of parsers and generators for the various flavors of feeds, as well as converters to convert from one format to another. The parsers can give you back Java objects that are either specific for the format you want to work with, or a generic normalized SyndFeed object that lets you work on with the data without bothering about the underlying format.

This project has a lot of business classes to work with genes and related named entities. Genes are part of a GeneDocument and may have gold IDs as well as mapped/predicted IDs. Another large part are species because most (all?) gene ID databases are species specific. So there are also classes or members to represent species mentions and the assignment of species IDs (taxonomy IDs) to genes. There is little to no business logic herein. This project is only useful as building block in other projects dealing with species assignment, gene ID mapping or similar efforts.

COBYLA2 is an implementation of Powell's nonlinear derivative free constrained optimization that uses a linear approximation approach. The algorithm is a sequential trust region algorithm that employs linear approximations to the objective and constraint functions, where the approximations are formed by linear interpolation at n + 1 points in the space of the variables and tries to maintain a regular shaped simplex over iterations. It solves nonsmooth NLP with a moderate number of variables (about 100). Inequality constraints only. The initial point X is taken as one vertex of the initial simplex with zero being another, so, X should not be entered as the zero vector.

ZooKeeper is a centralized service for maintaining configuration information, naming, providing distributed synchronization, and providing group services. All of these kinds of services are used in some form or another by distributed applications. Each time they are implemented there is a lot of work that goes into fixing the bugs and race conditions that are inevitable. Because of the difficulty of implementing these kinds of services, applications initially usually skimp on them ,which make them brittle in the presence of change and difficult to manage. Even when done correctly, different implementations of these services lead to management complexity when the applications are deployed.

Protempa supports the construction of software systems for querying clinical databases, summarizing patient data, detecting clinically significant data patterns in groups of patients or individual patients, and extract, transform and load (ETL). Its special feature, temporal abstraction, supports queries and summarization of data in terms of temporal patterns. Temporal patterns enable robust querying and extraction of clinical history. These patterns include frequencies (at least two, three, etc. of some event or observation); sequences (chemotherapy followed by surgery within 180 days, a hospital encounter followed by another hospital encounter within 30 days); and overlaps (falling platelet counts in the setting of HELLP syndrome).

This module packages a circuit breaker that can be used to avoid overloading or otherwise depending on a temporarily unavailable (remote) system. The central use of the circuit breaker is to prevent failures from one system to cascade to other systems in an unchecked manner. Thus, our implementation is chiefly concerned with replacing a failing component with another component that fails in a very predictable manner. These failures are not "dropped" or otherwise made invisible, and still need to be handled, but they will occur in a predictable, and hopefully usable manner.

The JAVE (Java Audio Video Encoder) library is Java wrapper on the ffmpeg project. Developers can take take advantage of JAVE2 to transcode audio and video files from a format to another. In example you can transcode an AVI file to a MPEG one, you can change a DivX video stream into a (youtube like) Flash FLV one, you can convert a WAV audio file to a MP3 or a Ogg Vorbis one, you can separate and transcode audio and video tracks, you can resize videos, changing their sizes and proportions and so on. Many other formats, containers and operations are supported by JAVE2.