Joint HPC Exchange¶
About Us¶
The Joint High Performance Computing Exchange (JHPCE) is a High-Performance Computing (HPC) facility in the Department of Biostatistics at the Johns Hopkins Bloomberg School of Public Health. This fee-for-service core began in 2008 as a collaborative effort between Biostatistics and the Computational Biology & Research Computing group in the department of Molecular Microbiology and Immunology. The facility has grown over the years and is open to all Johns Hopkins affiliated researchers.
The JHPCE Service Center manages 2 HPC computing environments.¶
JHPCE¶
The larger HPC environmnet is for general HPC computing on non-HIPAA data. We generally refer to this as the "J H P C E" cluster (each letter pronounced). Informaion on the JHPCE cluster can be found at the Introduction link.
CSUB¶
We also manage a smaller sub-cluster for working on CMS Medicare and Medicaid data. We refer to this cluster as the C-SUB (See Sub) cluster. While the JHPCE service cnter manages this HPC cluster, it's operation is overseen by the HARP organization in JHU. Technical infomation about the C-SUB can be found at the CSUB Overview.
Community¶
The facility is used primarily by labs and research groups in the Johns Hopkins Bloomberg School of Public Health (SPH), the Johns Hopkins School of Medicine (SOM) and the Lieber Institute for Brain Development (LIBD). We support the HPC needs of over 2000 user accounts, with 300 active users each quarter.
Cluster Details¶
The computing and storage systems are optimized for genomics and biomedical research. The cluster has 65 compute nodes, providing about 2800 cores, 30TB of DRAM and over 14 PB of networked mass storage. The network fabric consists of 10/40 Gbps ethernet connections. The facility is connected via a 40Gbps network to the University’s Science DMZ.
Networked mass storage uses open-source file systems (ZFS and Lustre-over-ZFS) to provide low cost file systems. We also have a 2PB disk-to-disk backup system off site for backing up more critical data.
The JHPCE cluster is optimized for the embarrassingly parallel applications that are the bread-and-butter of our stakeholders, e.g., genomics and statistical applications, rather than the tightly-coupled applications that are typical in traditional HPC fields, e.g., physics, fluid-dynamics, quantum simulation etc. Job scheduling is performed with the Simple Linux Utility for Resource Management (SLURM).
Cost Recovery¶
The JHPCE operates as a formal Common Pool Resource (CPR) Hierarchy with rights to specific resources based on stakeholder ownership of resources. To benefit the entire research community, excess computing capacity is made available to non-stakeholders on an as-available basis, in exchange for fees that defray the operating costs of the stakeholders.
If your lab is interested in joining the JHPCE community, either as a stakeholder or as a non-stakeholder, please contact the directors (jhpce@jhu.edu) to determine whether we can accommodate your needs.
If your lab is already a member, and you need to add new users, then have the users fill out the JHPCE new user request form.
Mark Miller and Brian Caffo
Co-Directors, JHPCE