DEVELOPMENT AND DEPLOYMENT OF FLEXIBLE AND SCALABLE CI FOR BIOMED RESEARCH

为 BIOMED 研究开发和部署灵活且可扩展的 CI

• 批准号: 8169339
• 负责人: PHILIP PAPADOPOULOS
• 金额: $ 26.8万
• 依托单位: UNIVERSITY OF CALIFORNIA, SAN DIEGO
• 依托单位国家: 美国
• 财政年份: 2010
• 资助国家: 美国
• 起止时间: 2010-05-01 至 2011-04-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8169339
• 关键词: Address; Biology; Code; Computer Retrieval of Information on Scientific Projects Database; Computer software; Data; Development; Ensure; Equilibrium; Funding; Grant; Individual; Institution; Linux; Logic; Operating System; Organ Model; Performance; Reproducibility; Research; Research Infrastructure; Research Personnel; Resources; Scientist; Services; Source; System; Testing; Time; Translational Research; United States National Institutes of Health; base; drug discovery; flexibility; image reconstruction; multicore processor; shared memory; tool

This subproject is one of many research subprojects utilizing the resources provided by a Center grant funded by NIH/NCRR. The subproject and investigator (PI) may have received primary funding from another NIH source, and thus could be represented in other CRISP entries. The institution listed is for the Center, which is not necessarily the institution for the investigator. Objectives Our objective in this core is to address the practical issues of adapting, optimizing and provisioning biomedical applications in drug discovery, cellular and organ modeling, and image reconstruction based upon current and emerging computing, data and network infrastructures. At the same time, we must ensure the accessibility, reproducibility and versatility of the large ensembles of software that are required to carry out multiscale analysis. Specific Aims Aim 1: Scaling and Adapting Multiscale Biology Codes to High-Performance Clusters and Multicore Processors: To allow application codes to take advantage of a new "balance of machines where individual nodes become large-scale, shared-memory symmetric multiprocessors (SMPs). Aim2: Providing Transparent and Service-Based Access to Multiscale and Multiphysics Biomedical Codes: To hide as much complexity as possible allows scientists to reason more easily about the logic of the systems or workflows required to carry out their research  and less about the low-level system details. Aim 3: Defining, Testing, and Supporting a Complete Cyberinfrastructure: To provide a reproducible cyberenvironment by understanding externally-supplied software, assembling into a distribution that sits on top of a standard Linux operating system, and regularly and rigorously testing. Aim 4: Integrating and Delivering Tools for Translational Research: To integrate and test selected "suites" of software application pipelines

该副本是利用众多研究子项目之一 由NIH/NCRR资助的中心赠款提供的资源。子弹和 调查员（PI）可能已经从其他NIH来源获得了主要资金， 因此可以在其他清晰的条目中代表。列出的机构是 对于中心，这不一定是调查员的机构。 目标 我们在此核心中的目标是解决在药物发现，细胞和器官建模中适应，优化和配置生物医学应用的实际问题，以及基于当前和新兴计算，数据和网络基础架构的图像重建。同时，我们必须确保进行多尺度分析所需的大型软件的可访问性，可重复性和多功能性。 具体目标 AIM 1：扩展和调整多尺度生物学代码到高性能群集和多层处理器：允许应用程序代码利用新的“机器平衡”，在这些机器中，单个节点成为大规模，共享的内存对称性多处理器（SMP）。 AIM2：提供透明和基于服务的访问多尺度和多物理 生物医学代码：为了掩盖尽可能多的复杂性，使科学家可以更轻松地对进行研究所需的系统或工作流程的逻辑进行推理，而不是少有关低级系统的详细信息。 AIM 3：定义，测试和支持完整的网络基础结构：通过了解外部供应软件，组装成位于标准Linux操作系统之上的分布，并定期且严格的测试来提供可再现的网络环境。 目标4：整合和交付转化研究的工具：集成和 测试选择的软件应用程序管道的“套件”