1- ALOV Map - Free - is portable Java® application for publication vector and raster maps to Internet and interactive viewing on web browsers. It supports the complex rendering architecture, the unlimited navigation and allows working with multiple layers, thematic maps, hyperlinked features and attribute data. (Examples are impressives and tutorial is very accessible).
2- Geotool example of on-line GIS viewer (java based)
3- WKB4J is a Java library designed to read the Well-Known Binary format from a data source (usually a database like Postgis) and transform this data into corresponding Java objects.
4- GeoServer Project : the open internet gateway for setting up geographic data server.
5- JTS Topology Suite : it is an API of 2D spatial predicates and function
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