Download JAR files tagged by mappings with all dependencies

This project contains some utilities to process ontologies and related data as retrieved from BioPortal. The tools include the download of ontologies from BioPortal, download of mappings from BioPortal and the extraction of names, synonyms, descriptions and superclasses of ontology concepts from downloaded ontologies.

Simple Java delimited and fixed width file parser. Handles CSV, Excel CSV, Tab, Pipe delimiters. Bind delimited or fixed width text to column names via XML mappings. Support for header and trailer records. Optionally, column names can be retrieved from the first record of a delimited file.

QueryObjectFactory (QOF) is a lightweight runtime JDBC byte-code generator providing support for CRUD (create, retrieve, update and delete) operations and stored procedure calls. It uses Java annotations to define mappings

MD4J is a passive, model driven, extensible J2EE webapp generator. Currently Hibernate 3 mappings are supported as input, with EJB 2.1, Struts 1.x and JSP 2.0 as output for CRUD and Search operations with patterns like MVC, DAO and SessionFacade. Ant task included.

Nomin is a mapping engine for the Java platform. It provides abilities to transform object trees according to declarative mapping rules. Main features of Nomin are no XML configuration, intuitively looking mapping, using arbitrary expressions and method invocations in mappings, pre and postprocessing right in a mapping listing, customizations. It's applicable for any Java compatible classes, not only JavaBeans.

Implementations of certain SPIs to provide a core set of functionality for the reference management framework. This includes ExternalReference implementations to reference data held in local files and URLs along with the appropriate translate / publish logic. Implementations in this package are tied only to the API, although certain metadata files such as hibernate mappings are also included where appropriate (these will be silently ignored if using a backing store that is not hibernate based)

The enhanced OAI server is a Java Servlet web application that implements the Open Archives Initiative Protocol for Metadata Harvesting (OAI-PMH) v2.0. It is based on OAICat (http://oclc.org/research/activities/oaicat.html) and the Biblio Transformation Engine (https://github.com/EKT/Biblio-Transformation-Engine). More than the flexibility it allows with BTE (custom filter and modifiers), it allows the administrator to define metadata mappings using XSLTs and that way to support easily more metadata formats.

mime-util is a simple to use, small, light weight and fast open source java utility library that can detect the mime types of files and streams. Due to the use of regular expressions and the java.nio packages it requires at least Java 1.4. mime-util uses file extension mappings and the magic.mime rules files located on your system as used by the Unix file(1) command. For OS's that do not support the Unix file(1) command, such as Windows, the library comes pre-packaged with a generic magic.mime file.

InteGraal has been designed in a modular way, in order to facilitate software reuse and extension. It should make it easy to test new scenarios and techniques, in particular by combining algorithms. The main features of Graal are currently the following: (1) internal storage to store data by using a SQL or RDF representation (Postgres, MySQL, HSQL, SQLite, Remote SPARQL endpoints, Local in-memory triplestores) as well as a native in-memory representation (2) data-integration capabilities for exploiting federated heterogeneous data-sources through mappings able to target systems such as SQL, RDF, and black-box (e.g. Web-APIs) (3) algorithms for query-answering over heterogeneous and federated data based on query rewriting and/or forward chaining (or chase)