Open Source Java Software Development Software - Page 100

Big-Brother is a collection of J2EE filters and servlets that provide custom monitoring and auditing of web-applications, keeping track of who does what, when, and how often. It makes use of the jakarta-apache Struts framework for the interface GUI.

Big Sack is a Java persistence mechanism that allows storage of key value pairs following the popular Big Data paradigms. Its a very simple and straightforward way to bridge the gap between in-memory data structures and long-term storage. It has the convenience of Java SDK TreeMap and TreeSet classes and is used the same easy way, but it includes rollback through undo logging to checkpoint data so it does not wind up in an unknown state regardless of failures. Data storage in the exabyte range is possible using filesystem and/or memory-mapped IO. Three levels of configurable write-through caching at different granularities ensure performance.

BigAl is a free open source and platform independent software for calculating really BIG numbers. It supports not only standard arithmetic, but also exact period determination, predefined factorials, fibonacci with seeds, factorization, nth root, etc

BigNumbers provides the tools to make (normally unreadable) BigDecimal calculations in Java easy. It allows you to express decimal calculations in a friendly way; BigNumbers will in turn take your expressions and turn them into BigDecimal calculations.

A Windows native distribution of Bigloo, a Scheme system that includes an optimizing compiler generating C code, Java classes and .NET CIL files as well as an interpreter.

Bigyo is a minimalistic, compact container framework written in Java,with main focus is on the runtime component (re)configuration, including JMX and transparent xml-based configuration persistence.

Bijoux is a small, extendable configuration language and interpreter for Java, implemented in XML. It can be incorporated in a Java application to provide more configuration options than are possible with fixed-semantic configuration schemes.

Set of Java utility classes. Includes: - C getopt functionality for command line processing - csv & ini file manipulation - Swing classes for things like limiting JTextField contents and organizing the GUIs main JFrame - RDBMS persistence package

Bimbo is a Java web framework to construct web applications using only annotated POJO's. The idea behind it is that a developer should not bother about look and feel of an application, but to let the framework handle all these details.

BinBase is a software for the automatic analysis of Massspec data from LECO GC-Tofs. All code and documentation has been moved to the google code site of this project: https://code.google.com/p/binbase/ And support is provided by the company coding and more, which can be reached under: contact@codingandmore.org

BinNavi is a binary analysis IDE - an environment that allows users to inspect, navigate, edit, and annotate control-flow-graphs of disassembled code, do the same for the callgraph of the executable, collect and combine execution traces, and generally keep track of analysis results among a group of analysts. BinNavi uses a commercial third-party graph visualisation library (yFiles) for displaying and laying out graphs. This library is immensely powerful, and not easily replaceable. In order to perform direct development using yFiles, you need a developer license for it. At the same time, we want the community to be able to contribute to BinNavi without needing a commercial yFiles license. In order to do this and conform to the yFiles license, all interfaces to yFiles need to be properly obfuscated.

This project is a highly flexible implementation of the well known bin packing algortihms: next fit, first fit, best fit, worst fit. The elements and bins may have any number of dimensions.

Binah is a tool that allows both real-time and off-line visualization of multi-threaded Java program execution to provide an additional perspective for understanding and debugging.

A stream editor that can be invoked by another java program or also the command line. It can handle binary data too. Unlike newline based programs like sed, it allows different ways of reading the stream through the traverser, buffer and commands interfaces. A traverser decides how the data is read. This data is stored in the buffer. The commands decide what to do with this data. All data is handled as characters, by specifying an encoding. For binary data, the encoding ISO-8859-1 is used by default, has 256 single-byte characters. Data in the buffer is available as a charsequence to the commands for stuff like regex matching etc. The output can be redirected to a file, and an output encoding can be specified.The commands can also store/retrive arbitrary data for later use in a map. Evaluation of expressions in commands is done using Apache Jexl, and custom functions can also be used. Sample java usage and sample command line usage examples are included.

BinaryNotes is the Open Source ASN.1 (Abstract Syntax Notation One) framework for Java and .NET based on annotations/attributes. The framework has the flexible ASN.1 compiler, the runtime library that supports BER, DER and PER, and the Message Queues

Connects Java objects and Swing user interface controls. Specifying underlying object for a control, along with a method to extract property value from the object, allows value to be displayed and edited in the control.

A reference implementation of BioAPI2.0 is being developed.

This is a Java-based project for complex event extraction from text and co-reference resolution. Currently the code can read BioNLP shared task format (http://2011.bionlp-st.org/) and i2b2 Natural Language Processing for Clinical Data shared task format (https://www.i2b2.org/NLP/DataSets/Main.php). Event extraction includes finding events and the parameters for an event in a text. The method is based on SVM but other ML algorithms can be adopted. The method details are explained in the following paper: Ehsan Emadzadeh, Azadeh Nikfarjam, and Graciela Gonzalez. 2011. Double Layered Learning for Biological Event Extraction from Text. In Proceedings of the BioNLP 2011 Workshop Companion Volume for Shared Task, Portland, Oregon, June. Association for Computational Linguistic

The BioNLP UIMA Component Repository provides UIMA wrappers for novel and well-known 3rd-party NLP tools used in biomedical text prosessing, such as tokenizers, parsers, named entity taggers, and tools for evaluation.

The BioUtils - Proteomics package is a lightweight Java framework for handling commonly used data produced and needed in the field of Mass spectrometry in general and especially in the field of Proteomics. It's stable, intuitive to use and good integrated with Java 6 SDK and later.

It moves by itself inside networks like virus infection & plagues, it is being written to solve computer virus problem drastically and responsibly. It is legal, free and open for public domain to improve W3 ICT Security.

An ontology-centered framework within the Semantic Web infrastructure that aims at standardizing various knowledge involved in the biological modeling processes. Three biological cases have been developed to evaluate the implementation of this framework.

The purpose of this project is to write a patch for Bison which adds the capability of producing Java code instead of C code. The software is based on the original Bison sources (version 1.28 of Bison). It provides a new -j option which selects Java ou

Bistro is a new programming language that integrates the best features of Smalltalk and Java™. Bistro is a variation of Smalltalk that runs on top of any Java™ virtual machine (VM) that conforms to Sun's Java™ specifications.

The BitBashers software represents a collection of useful libraries and utilities that help software developers with general purpose tasks.