MICDE Fall 2016 Seminar Series speakers announced

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The Michigan Institute for Computational Discovery and Engineering (MICDE) is proud to announce its fall lineup of seminar speakers. In cooperation with academic departments across campus, the seminar series brings nationally recognized speakers to campus.

This fall’s speakers are:

Sept. 13: Nathan Kutz, Professor of Applied Mathematics, University of Washington

Sept. 22: Rob Gardner, Senior Scientist at the Computation Institute, University of Chicago

Sept. 29: Jeremy Lichstein, Assistant Professor of Biology, University of Florida

Oct. 6: Jonathan Freund, Professor of Mechanical Science and Engineering and of Aerospace Engineering, University of Illinois, Urbana-Champaign

Oct. 14: Anthony Wachs, Assistant Professor of Mathematics and of Chemical and Biological Engineering, University of British Columbia

Oct. 26: Andrea Lodi, Professor of Mathematical and Industrial Engineering, Polytechnique Montreal

Nov. 11: David Higdon, Professor of the Biocomplexity Institute, Virginia Tech

Dec. 9: Ann Almgren, Staff Scientist at the Center for Computational Sciences and Engineering, Lawrence Berkeley National Laboratories

For more information, including links to bios and abstracts as available, please visit micde.umich.edu/seminar-series/.

Students in the Graduate Certificate in Computational Discovery and Engineering program are required to attend at least half of the seminars.

Registration open for on-campus telecast of XSEDE workshop on MPI — Sept. 7-8

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U-M is hosting a telecast of a workshop on MPI (message passing interface) presented by XSEDE and the Pittsburgh Supercomputing Center.

This workshop is intended to give C and Fortran programmers a hands-on introduction to MPI programming. Attendees will leave with a working knowledge of how to write scalable codes using MPI – the standard programming tool of scalable parallel computing.

Time/Date: 11 a.m. to 5 p.m. Eastern, Wednesday, Sept. 7 and Thursday, Sept. 8

Location: Room B003E, North Campus Research Complex (NCRC), Building 16, 2800 Plymouth Rd.

Registration: Registration is required through the XSEDE website (you must create an XSEDE user account to register). Space is limited.

More information: Class website.

Contact: Simon Adorf (csadorf@umich.edu)

Software Carpentry workshop at U-M — May 2-3

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A Software Carpentry workshop will be held at the U-M Medical School May 2 and 3. These workshops are free and open to anyone on campus; the sessions are suitable for researchers in the humanities and social sciences. Register here.

This hands-on workshop will cover basic concepts and tools, including program design, version control, data management, and task automation. Participants will be encouraged to help one another and to apply what they have learned to their own research problems.

Who: The course is aimed at graduate students, postdocs, and other researchers across the University of Michigan. You don’t need to have any previous knowledge of the tools that will be presented at the workshop.

Where: Furstenberg 2710 (2nd floor of Med Sci II).

Midwest Big Data Hub offers early career seed funding to improve data access — April 1, May 1 deadlines

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The Midwest Big Data Hub, an NSF-funded group including U-M’s Michigan Institute for Data Science (MIDAS), is seeking proposals from early career researchers to enhance collaborations with data-producing organizations to improve access to data. Senior researchers are also welcome to apply for funding for activities that bring together data producers and researchers with significant participation from early career researchers.

The goal of the funding, provided by the Computing Community Consortium, is to improve partnerships and collaboration between data producing organizations in industry, government, and academia and researchers. Activities can include workshops, internships, hackathons at universities, data-related competitions, travel grants and lecture series. Awards will range from between $10,000 and $40,000.

Deadlines for applications are April 1 and May 1.

For more information, including how to apply, read the proposal description on the MIDAS website.

MIDAS hosting Data Science Summer Camp for high school students

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The Michigan Institute for Data Science (MIDAS) is hosting a data science summer camp for juniors and seniors in high school, from July 18 – 22, 2016.

Students in the camp, titled “From Simple Building Blocks to Complex Shapes: A Visual Tour of Fourier Series” will create art, diagnose disease, and play detective using the Fourier Series. Students will learn the basic mathematics behind Fourier series and use them to tackle data science problems by starting with simple building blocks and scaling up the complexity. Click to watch our preview video.

Any high school student can apply, with a special focus on Juniors and Seniors. Interest in mathematics and art is strongly encouraged; experience with trigonometry recommended. The camp will be full day, and attendance is expected all five days. Contact the organizers at midas-camp@umich.edu  or visit the camp’s website for more information.

HPC outage due to power maintenance, Saturday, April 2

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The Modular Data Center, which houses the Flux HPC cluster, will be without power starting from 6 a.m. to approximately 6 p.m. on Saturday, April 2, for preventative maintenance of electrical infrastructure on North Campus.  Additional networking maintenance for campus storage systems is going to start at 11pm Saturday night at the Administrative Services Building machine room which will also impact the HPC clusters.

Therefore, we expect Flux, Armis, /scratch and transfer hosts to be out of service from 6 a.m. until at least midnight.

During the outage, annual preventative maintenance on the MDC will also take place. ARC-TS will also take advantage of the outage to install firmware updates to our new InfiniBand switch.

We will update the outage schedule as needed on Twitter at @ARCTS_UM.

REMINDER: Info Sessions: Graduate programs in computational and data science — Feb. 22, 23

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Learn about graduate programs that will prepare you for success in computationally intensive fields, and enjoy some pizza. Presentations will describe the following programs:

  • The Ph.D. in Scientific Computing is open to all Ph.D. students who will make extensive use of large-scale computation, computational methods, or algorithms for advanced computer architectures in their studies. It is a joint degree program, with students earning a Ph.D. from their current departments, “… and Scientific Computing” — for example, “Ph.D. in Aerospace Engineering and Scientific Computing.”
  • The Graduate Certificate in Computational Discovery and Engineering trains graduate students in computationally intensive research so they can excel in interdisciplinary HPC-focused research and product development environments. The certificate is open to all students currently pursuing Master’s or Ph.D. degrees at the University of Michigan.
  • The Graduate Certificate in Data Science is focused on developing core proficiencies in data analytics: 1) Modeling — Understanding of core data science principles, assumptions and applications; 2) Technology — Knowledge of basic protocols for data management, processing, computation, information extraction, and visualization; 3) Practice — Hands-on experience with real data, modeling tools, and technology resources.

Monday, February 22, 5-6 p.m., Room 2001, LS&A Building, 500 State St. 

Tuesday, February 23, 5-6 p.m., EECS 1200, 1301 Beal Ave. 


  • Krishna Garikipati, Professor of Mechanical Engineering and Mathematics, and Associate Director for Research, Michigan Institute for Computational Discovery and Engineering.
  • Ivo Dinov, Associate Professor of Computational Medicine and Bioinformatics, and Human Behavior and Biological Sciences.
  • Ken Powell, Arthur F. Thurnau Professor of Aerospace Engineering.

There will be time for questions and discussion.

MICDE Seminar: Jim Belak, Lawrence Livermore National Lab, “Bridging Scales within Exascale Materials Co-design Center” — Feb. 5

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As part of the MICDE Seminar Series, Jim Belak of the Materials Science Division at Lawrence Livermore National Laboratory will speak on campus Friday, Feb. 5.

Abstract: The advent of Advanced / Additive Manufacturing and the Materials Genome Initiative has placed significant emphasis on accelerating the qualification of new materials for use in real applications. Within these workflows lies both the engineering scale qualification through building and testing components at scale and full-scale modeling with integrated continuum computer codes and the materials scale qualification through revolutionary methods to non-destructively measure microstructure (3DXRD) and physics specific experiments coupled with meso-scale mechanics simulations of the same physics specific experiment using the same microstructure. This ICME process is one of the use cases that drives the Exascale Materials Co-design Center (ExMatEx). The goal of the Co-design Center is very analogous to the acceleration of new materials deployment within the MGI, rather co-design accelerates the deploying of laboratory concepts for future computer components to enable a productive exascale computer system. To enable better meso-scale understanding in the continuum models, ExMatEx is creating a direct coupling between the continuum integrated code and direct numerical simulation of the meso-scale phenomena. Here we review the ExMatEx project, and its use cases.

Bio: Jim Belak is an Applied Scientist in the Materials Science Division at Lawrence Livermore National Laboratory. His career has centered around the application of High Performance Computing to equilibrium and non-equilibrium problems in Condensed Matter Physics, including: order-disorder phase transition in solids; indentation, metal cutting and tribology of interfaces; shock propagation and spallation fracture; structure and dynamics of grain boundaries and defects in solids; and kinetics of phase evolution in extreme environments. These applications have required the development of new algorithms and application codes for emerging high performance parallel computers and the use of novel x-ray synchrotron techniques (3D x-ray tomography and small-angle x-ray scattering) to guide and validate the simulations. Currently, Jim co-leads the Exascale Co-design Center for Materials in Extreme Environments (ExMatEx).

MIDAS Seminar: Kevin Ward, Executive Director, Michigan Center for Integrative Research in Critical Care, “Data in Motion Phenotyping” — Feb. 5

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MIDAS is proud to announce that Kevin Ward, Professor of Emergency Medicine and Executive Director of the Michigan Center for Integrative Research in Critical Care, and Fast Forward Medical Innovation, will speak at 4 p.m., Feb. 5, 2016, in the Michigan League Ballroom, as part of the MIDAS Seminar Series. All seminars are streamed live (sign in as Guest).

CSCAR Data Science Skills Series adds session on Pandas case studies — Feb. 17

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CSCAR is offering a series of workshops on data science skills using Python. The workshops will be held in the Earl Lewis room in the Rackham building. All workshops will take place on Wednesday afternoons from 3:30-5.

No registration is necessary and there is no fee to attend. Please note: A new section has been added on Pandas case studies.


  • January 27: Data management with Pandas
  • February 10: Graphics and data visualization with Matplotlib and Bokeh
  • NEW: February 17: Pandas case studies (CMS data analyses)
  • February 24: Basic statistical analysis with Statsmodels
  • March 9: Sklearn for predictive analysis and data exploration
  • March 23: Advanced regression analysis (GEE, mixed models and multiple imputation) with Statsmodels
  • April 6: Survival analysis with Statsmodels

Additional workshops will be scheduled on the following topics, dates to be announced:

  • Geospatial analysis
  • Building and accessing databases
  • MPI, parallel, and distributed computing

Class material will be posted on the series website.