We now have a medium queue on Orchestra! This queue allows job runtimes of up to 5 days, and unlike jobs in the long queue, jobs submitted to the medium queue will not be suspended. Please continue to use the long queue if your job is expected to take more than 5 days (and less than 30 days). For a brief overview of our current queue structure, please visit our wiki page for more information.
We also now have 10 file transfer servers instead of one! To access any of them, the process is still the same (via transfer.orchestra.med.harvard.edu).
NOTE: for after hours emergency support please contact the IT help desk and let them know you have a research computing issue by calling (617) 432-2000 or e-mailing email@example.com.
The Orchestra cluster is a shared high-performance computing environment serving a large research community with diverse research requirements and workflows. Tens of thousands of jobs run on the cluster every day, and we are constantly improving the job handling software and configuration to balance throughput between our many users.
Hundreds of HMS-affiliated researchers use the Orchestra high-performance computing cluster for big and small projects in next-gen sequencing analysis, molecular dynamics, mathematical modeling, image analysis, proteomics, and other areas. Click the big button below to get an account on the Orchestra cluster. The Orchestra wiki has lots of information on using the cluster, including an Introduction to using Orchestra and a Frequently Asked Questions page..
Computational research is an increasingly important part of any life science research project. Research computing staff help researchers get access to software and hardware resources and provide advice on how to use those resources. Ask us big or small, beginner or expert questions.
We can help you ...
Research computing consultants with a life science background can talk with you about your project, help you decide an effective strategy for the computational part of your research, and acting as liaisons to other parts of IT to access the necessary resources. If we can't help with a particular problem, we'll try to find somebody who can.
All services are offered free of charge.
The thousands of researchers we support generate a tremendous amount of data. Some of our group resources and time go towards evaluating future storage products for cost, performance, and suitability for our researchers. There are multiple petabytes of network attached storage, in several different storage tiers available to HMS-affiliated researchers.
As of 2016, HMS announced a Research Storage Funding Model to recover the cost of storage. PIs will be charged for storage on certain filesystems that goes beyond a base, no-cost amount of disk space.
Members of our group are also pro-active in the Quad community and teach classes every semester and summer. Courses include UNIX, introduction to using Orchestra, Perl/bioPerl, R/Bioconductor, RNAseq, and others. Slides from classes are posted on our User Training page.
The computational resources needed by our community wax and wane with the academic year and the funding deadlines. We are looking towards the future and evaluating cloud computing as a possible solution to provide surge compute capacity during times of high need.
We do have some code available through our Github.
The following licensed desktop research applications are distributed by research computing; all downloads require HMS eCommons ID authentication. Please note that the HMS Affinity ID and Harvard PIN will not work for this.
See the HMS Software Wiki for links to other Harvard organizations with software licensing resources.
I help support the HMS user community to better use our HPC, web hosting, and software licensing services.
I strategically visualize things. Ask me about the future of Orchestra. Suggestions welcome.
Helping biomedical researchers with their computational needs. Any feedback is welcomed.
Doug's focus is on the web-hosting service and base infrastructure of the Orchestra cluster.
I make bioinformatics accessible, and interpret results back to the biology.
I love talking to scientists about their research and helping catalyze their way over the computational barriers. "perl" is one of my favorite verbs.
Helping users with Orchestra and beyond.
I help users running and optimizing their codes. I specialize in Matlab and programs parallelization.
I maintain and tune the parallel file systems on Orchestra, ask me about lustre.
Taming pythons for bioinformatics research.
Read more and apply online: Job ID: 39320BR
Help us manage tens of PBs of Research Data Storage. Read more and apply online: Job ID: 38235BR
We have an exciting position open to do some automation of systems administration for HPC. Any parallel file system experience is a plus.
Research Computing works together closely with a number of other organizations in order to provide the most complete research experience possible.
The Tools and Technology Committee (TnT) funds upgrade and equipment purchases for cores and shared equipment within departments. They also serve as a central clearinghouse for information about core facilities and training across HMS.
The Structural Biology Grid (SBGrid) support structural biologists by providing structural biology laboratories with a tested and refined software infrastructure that includes a large library of scientific applications, as well as support for High Performance Computing and training.
The Harvard Chan School of Public Health Bioinformatics Core provides consulting, training, tools, databases and best practices for high-throughput biological data, focusing on next-generation sequencing support. Their consulting services for HMS researchers have been subsidized for by TNT and the Harvard NeuroDiscovery Center.
Orchestra is a shared high-performance computing (HPC) environment maintained by our group. It has over 5000 compute cores and several Petabytes of network attached storage. Although it was originally designed to enable computationally intensive bioinformatics research, it has evolved to support other IT solutions including web hosting. You can read more about the Orchestra hardware here.
By recommendation of the CIO, The Research Information Technology Group (RITG) was founded in July 2003 by the Information Technology department to support research computing on the Quad that falls beyond the scope of local system administrators or the existing HMS IT department's desktop support.
In 2011, by recommendation of the Research Computing Governing Council, RITG was expanded with the addition of a Director and Research Computing Consultants. The new organization was named the Research Computing group (RC).
Besides augmenting research IT support on the Quad, RC works with other departmental administrators to pool resources, efforts, and expertise. We aim to foster collaboration within the community of systems administrators at HMS to share knowledge and establish common best practices.
You are more than welcome to visit us at the following address at any time. However, we may not always be there so it's best to send us an e-mail to confirm first. We do have weekly office Hours on Wednesdays from 1-3pm. Stop by to chat about anything, or bring your data and questions.Gordon Hall #500