Compute Canada

Coast to Coast Seminar Series

The Coast to Coast Seminar is an hour-long presentation given on a scientific topic and made accessible to audiences at a number of remote sites through collaboration technology. C2C seminars are held every two weeks throughout the academic year alternating between the West Coast and the East Coast of Canada.

The topic of the Spring 2015 C2C seminar series is "The power of linked administrative health data for population health research: robust data and progressive data analytics".

Please contact us at help@hpcvl.org if you want to attend one of these seminars.

The first lecture in the series will be broadcast on September 30, 2014

Details can be found at http://www.irmacs.sfu.ca/events/coast-coast-seminars.


January 20, 2015 2:30 pm - 3:30 pm

Coast to Coast Seminar Series - Border Air Quality Study: Does where you live affect your health?

Dr Michael Braer, Faculty of Medicine, School of Population and Public Health, University of British Columbia

Abstract:

The Border Air Quality Study is a cluster of research projects that was designed to support the development of an international strategy for the Georgia Basin-Puget Sound airshed. The University of British Columbia’s efforts were focused on establishing cohorts to examine the impact of air pollution on birth outcomes, the development of childhood respiratory disease and adult cardiovascular health using multiple administrative health databases linked to geospatial environmental exposure information developed by the research team. Over 40 researchers from the University of British Columbia, the University of Washington and the University of Victoria were involved in the project which was funded by Health Canada.

About the Lecturer:

Michael Brauer joined the UBC faculty in 1991 in the Department of Medicine. He was an inaugural member of the Occupational Hygiene Program and served as Director of the School of Environmental Health from 2003-2008 and as as the Occupational and Environmental Health theme co-lead in SPPH from 2011-2014. He is currently Director of the Bridge Program, a strategic training fellowship program linking public health, engineering and policy. He also holds associate appointments in the Division of Respiratory Medicine and the Institute for Resources, Environment and Sustainability at UBC.

Dr. Brauer received bachelor’s degrees in Biochemistry and Environmental Sciences from the University of California-Berkeley (1986) and a doctorate in Environmental Health from Harvard University (1990). He was a visiting scientist at the Institute of Environmental and Occupational Medicine at Arhus University in Denmark (1991), at the Institute for Risk Assessment Sciences at Utrecht University in The Netherlands (2000) and at the East-West Center in Hawaii, USA (2008). His research focuses on the assessment of exposure and health impacts of air pollution, with specific interest in air pollution and global health, transportation-related and biomass air pollution. He has participated in monitoring and epidemiological studies throughout the world and served on advisory committees to the World Health Organization, the Climate and Clean Air Coalition, the US National Academy of Sciences, the Royal Society of Canada, the International Joint Commission and governments in North America and Asia. He is an Associate Editor of Environmental Health Perspectives and a member of the Core Analytic Team for the Global Burden of Disease.


February 3, 2015 2:30 pm - 3:30 pm

Coast to Coast Seminar Series - From late effects research to quality care: The Childhood, Adolescent, and Young Adult Cancer Survivor Program (CAYACS)

Mary McBride, Program Leader, The Childhood, Adolescent and Young Adult Cancer Survivor Program (CAYACS), BC Cancer Agency

Abstract:

The goal of this research project is to generate and transfer knowledge of late effects and care of young cancer survivors to optimize survivor and care outcomes.  
Key Objectives:
• Develop a resource for childhood, adolescent, and young adult cancer survivorship research
• Determine risks and predictors of late-occurring and long term medical problems
• Examine patterns and quality of (health) care in relation to these risks
• Transfer knowledge for change in (health) care policy and practice

About the Lecturer:

Mary McBride's research interests include childhood and young adult cancer issues, non-ionizing radiation as a cause of cancer, and cancer registries. She is a member of the Agency's Paediatric Tumour Group, a committee member of the Cancer in Young People Surveillance Program of the Public Health Agency of Canada, and a member of the C17 Canadian childhood cancer research group. She has served on committees for the Ethics Office of the Canadian Institutes for Health Research (CIHR) and the North American Association of Central Cancer Registries. She was a member of an Expert Panel for the Royal Society of Canada in a review of potential health risks of radio-frequency fields from wireless communication devices (1999), and a member of an expert Advisory Committee for a National Tower Policy Review sponsored by Industry Canada (2005).

She is a member of several professional associations, including the Children's Cancer Group (COG) (a North-America-wide clinical research group for childhood cancer), and the International Society for Pediatric Oncology (an international professional society).


February 17, 2015 2:30 pm - 3:30 pm

Coast to Coast Seminar Series - The Canadian Partnership for Tomorrow Project: Canada's Platform for Chronic Disease Prevention Research

Dr John Spinelli, Faculty of Medicine, School of Population and Public Health, University of British Columbia

Abstract:

TBA

About the Lecturer:

Coming soon


March 3, 2015 2:30 pm - 3:30 pm

Coast to Coast Seminar Series - Quality and costs of end-of-life cancer care: the effect of homecare nursing in three provinces

Reka Pataky, Data Linkage Coordinator, BC Cancer Agency

Abstract:

TBA

About the Lecturer:

Coming soon


March 17, 2015 2:30 pm - 3:30 pm

Coast to Coast Seminar Series - How do I love data? Let me count the ways … Using linked databases for work and health research

Dr Mieke Koehoorn, Faculty of Medicine, School of Population and Public Health, University of British Columbia

Abstract:

The key focus of my program of research is the use of workers’ compensation claims data, linked to other databases, for policy-relevant research on work and health. As co-lead of the Partnership for Work, Health and Safety at the University of British Columbia and professor in the university's School of Population and Public Health, I will share examples of the contribution of research to informing workers' compensation policy and programs in British Columbia, Canada. Research examples include the surveillance of occupational injuries and cancers, the occupational epidemiology of cardiovascular disease among emergency workers, and the evaluation of compensation policies and procedures, including the effect of expedited surgical fees and private surgical clinics on work disability duration and the effect of faller certification on injury rates in the forestry sector. I also hold a research chair in gender, work and health and will discuss the importance of integrating sex and gender based analysis in workers’ compensation research. Finally, the talk will discuss the potential use of the linked health data for comparative research across compensation systems in Canada and with other jurisdictions.

About the Lecturer:

Coming soon


March 31, 2015 2:30 pm - 3:30 pm

Coast to Coast Seminar Series - Primary Health Care Utilization Care for Alcohol-Attributed Diseases in British Columbia

Amanda Slaunwhite, University of Victoria

Abstract:

TBA

About the Lecturer:

Coming soon

ADF Density-Functional Software

HPCVL offers access to the ADF computational chemistry package. This includes the Amsterdam Density Functional (ADF) code for molecular DFT, as well as the BAND solid-state software, and other components. The software runs on our main M9000 comp[ute cluster. To use this software, please type or include in your setup files the command:

use adf2012.01

Alternatively, you can type

use adf

and will be set up for the most current version. If you need to continue to use earlier versions, you can do so by typing

use adf2008.01 or
use adf2009.01 

Details about using ADF on our systems can be found in the FAQ file.

Please let us know if you encounter any problems with the new version or need assistance running ADF jobs.

System Changes after Storage Upgrades

Apart from a substantial increase in available disk space, some other alteration have been made to our systems:

  • The new default for MPI programs is now ClusterTools 8.1 instead of CT 7.1. This means that using mpirun and compiler macros such as mpif90 or mpicc will use CT8 now. If you need to stick with CT7, you need to issue a "use ct7" command to override the default. The use of CT6 with mprun and mpif90 etc. is not affected by this.
  • We have added the queues for our Enterprise M9000 cluster to the default Grid Engine queue pool, so that jobs that were submitted without additional specification will be either scheduled on the Sunfire 25K's or the Enterprise M9000 servers.

    Note, that if a specific cluster is desired (for instance, if you have compiled code specifically for the M9000 servers) it can be requested by inserting a line:

    #$ -l qname=x.q

    into the Grid Engine script, where x.q is 25k.q for the Sunfires and m9k.q is for the M9000's.

External Usage Stats

HPCVL provides resources to many researchers external to the four CFI applicant institutions. The graph below shows external usage of the CFI funded CPU cluster at the central site. The Canada Foundation for Innovation (CFI),the Ontario Innovation Trust (OIT), and the Ontario Ministry of Research and Innovation have funded the resources at that site and the usage is represented as the percent of the usage of that equipment. Currently, 40 CPUs of the 1008 CPU cores Sun Fire cluster are set aside as workup and test resources and are not included in the percent usage of the cluster.

The total number of installed CPUs in the Sun Fire cluster is 1008 with the additional CPUs being funded through the Sun Microsystems. The total disk storage capacity is 160 TB of T3 StorEdge.

External CFI Usage

Comparing MPI and OpenMP

An interesting article comparing shared and distributed-memory approaches to parallel computing can be found here.

HPCVL strikes partnership with NAG

On November 16, 2002 HPCVL announced a partnership with the Numerical Algorithms Group. Please check here for the press release.