CHIMERA WEB SERVICES EXTENSIONS

Chimera 网络服务扩展

• 批准号: 8363630
• 负责人: THOMAS E FERRIN
• 金额: $ 2.79万
• 依托单位: UNIVERSITY OF CALIFORNIA, SAN FRANCISCO
• 依托单位国家: 美国
• 财政年份: 2011
• 资助国家: 美国
• 起止时间: 2011-07-01 至 2012-06-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8363630
• 关键词: Address; Architecture; Biomedical Computing; Chimera organism; Client; Computer software; Data; Databases; Electron Microscopy; Funding; Grant; Imagery; Informatics; Internet; Metadata; National Center for Research Resources; Occupations; Output; Phase; Principal Investigator; Proteins; Reaction Time; Research; Research Infrastructure; Resources; Running; Services; Side; Source; United States National Institutes of Health; biocomputing; cost; graphical user interface; platform-independent; web services

This subproject is one of many research subprojects utilizing the resources provided by a Center grant funded by NIH/NCRR. Primary support for the subproject and the subproject's principal investigator may have been provided by other sources, including other NIH sources. The Total Cost listed for the subproject likely represents the estimated amount of Center infrastructure utilized by the subproject, not direct funding provided by the NCRR grant to the subproject or subproject staff. Web services provide a convenient, platform-independent way for clients to obtain services from a remotecomputer. For example, while Chimera is not distributed with large databases, users can fetch data via the web from the Protein Data Bank (PDB), the Electron Microscopy Data Bank (EMDB), and several other sources. Some useful capabilities are not yet available in Chimera because they require long computations or data resources not suitable for desktop computing, and access via web services is also problematic because long response times do not fit well with Chimera's interactive user interface. To address this limitation, we propose to deploy service oriented architecture (SOA) software that supports long-running jobs on the RBVI web servers and enables Chimera to communicate with these jobs. We will deploy the Opal Toolkit (nbcr.net/software/opal) from the National Biomedical Computation Resource (an NCRR BTRC) on the RBVI web servers to provide the server side of the architecture. We will then implement a simple interface in Chimera to access each service directly; that is, Chimera will "know" which RBVI web services are available and what parameters each service expects. In the second phase, we will implement a more powerful interface that queries the web server for descriptions of all available services, automatically generates a graphical user interface from web service metadata, and converts service output to data that can be accessed via the standard Chimera interface.

该子项目是利用资源的众多研究子项目之一 由 NIH/NCRR 资助的中心拨款提供。子项目的主要支持 并且子项目的主要研究者可能是由其他来源提供的， 包括其他 NIH 来源。 子项目可能列出的总成本 代表子项目使用的中心基础设施的估计数量， NCRR 赠款不直接向子项目或子项目工作人员提供资金。 Web 服务为客户端提供了一种方便的、独立于平台的方式来从远程计算机获取服务。例如，虽然Chimera没有分布大型数据库，但用户可以通过网络获取数据 来自蛋白质数据库 (PDB)、电子显微镜数据库 (EMDB) 和其他几个来源。一些有用的功能在 Chimera 中尚不可用，因为它们需要长时间的计算或不适合桌面计算的数据资源，并且通过 Web 服务访问也存在问题，因为较长的响应时间与 Chimera 的交互式用户界面不太适合。为了解决这个限制，我们建议部署面向服务的架构（SOA）软件，该软件支持 RBVI Web 服务器上长时间运行的作业，并使 Chimera 能够与这些作业进行通信。 我们将在 RBVI Web 服务器上部署来自国家生物医学计算资源（NCRR BTRC）的 Opal 工具包 (nbcr.net/software/opal)，以提供架构的服务器端。我们将 然后在Chimera中实现一个简单的接口来直接访问各个服务；也就是说，Chimera 将“知道”哪些 RBVI Web 服务可用以及每个服务需要哪些参数。在第二阶段，我们将实现一个更强大的接口，该接口可以查询 Web 服务器以获取所有可用服务的描述，从 Web 服务元数据自动生成图形用户界面，并将服务输出转换为可以通过标准 Chimera 接口访问的数据。