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LexBIG Software User Agreement

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https://gforge.nci.nih.gov/scm/?group_id=491

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Example source is provided below for a simple program that lists the available coding schemes (containers for vocabulary concepts and relations) registered to a LexBIG server node:

import org.LexGrid.LexBIG.DataModel.Collections.CodingSchemeRenderingList;
import org.LexGrid.LexBIG.DataModel.InterfaceElements.CodingSchemeRendering;
import org.LexGrid.LexBIG.Impl.LexBIGServiceImpl;
import org.LexGrid.LexBIG.LexBIGService.LexBIGService;
import org.LexGrid.LexBIG.Utility.ObjectToString;

public class ListCodeSystems {
     public static void main(String[] args) {
          try {
               LexBIGService lbs = new LexBIGServiceImpl();
               CodingSchemeRenderingList schemes = lbs.getSupportedCodingSchemes();
               for (CodingSchemeRendering csr
                         : schemes.getCodingSchemeRendering() )
                    System.out.printIn(

     ObjectToString.toString(csr.getCodingSchemeSummary()));
          } catch (Exception e) {
               e.printStackTrace();
          }

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This section describes architectural detail for services provided by the LexBIG system. These services are geared toward the administration, management, and serving of vocabularies defined to the LexGrid/LexBIG information model. A system overview is provided, followed by a description of key subsystems and components. Each subsystem is described in terms of its overall structure, formal model, and specification of key public interfaces.

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Overview

The LexBIG Service is designed to run standalone or as part of a larger network of services. It is comprised of four primary subsystems: Service Management, Service Metadata, Query Operations, and Extensions. The Service Manager provides administration control for loading a vocabulary and activating a service. The Service Metadata provides external clients with information about the vocabulary content (e.g. NCI Thesaurus) and appropriate licensing information. The Query Operations provide numerous functions for querying and traversing vocabulary content. Finally, the extensions component provides a mechanism to extend the specific service functions, such as Loaders, or re-wrap specific query operations into convenience methods. Primary points of interaction for programming include the following classes:

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Finally, the LexBIG architecture provides the underpinnings for LexBIG services to be made accessible through the caGRID environment in the future, where vocabulary services might be deployed and discovered within a caGRID Globus container. However, this portion of the API is preliminary and awaits coordination with caBIG® Architecture WS designees to determine exact recommendations and nature of LexBIG services on the grid.

Query Subsystem

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Overview

This subsystem provides the functionality required to fulfill caCORE/EVS and other vocabulary requests. The Query Service is comprised of Lexical Operations, Graph Operations, Metadata, and History Operations.

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If a Code Set is selected in the lower left, then the lower right section will look like this:

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In the lower right section, there are two halves - the top half and the bottom half. The top half is used to apply restrictions. The bottom half provides query options and resolution.

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If you select a Coded Node Graph in the lower left section of the LexBIG GUI, the lower right section will look like this:

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Again, there are two halves to the lower right section. The top half allows restrictions to be applied to the selected Code Graph, and it works the same as it does for a Coded Node Set. Please see the section above on applying restrictions to a Coded Node Set.

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Clicking on the Resolve buttons for either a Coded Node Set or a Coded Node Graph will bring up the Result Browser window:

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The left side shows a list of all the concept codes returned. When a concept code is selected on the left, the upper right will show a full description of the selected code. The lower right will show a graph view of the neighboring concepts.

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This appendix includes lists and hypertext links, where appropriate, to technical manuals, articles, scientific publications and online resources related to the LexBIG project.

• LexBIG GForge Projectproject Docs archive, Files archive
• LexBIG Project Administration Materials
• LexGrid Home Page for this release
• Vocabulary Knowledge Center
• Sun Java Tools (JDK, JRE, NetBeans)

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• Eclipse Project (IDE)

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Appendix B Included Materials

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Redistributable components (e.g. those listed below) and associated license terms are also made available. The redistributable components provide equivalent content and function, but require more extensive configuration for program execution. |

Appendix C Additional Terms and Conditions

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