SciNet News October 2012

Events Coming Up

Monday October 1

MAINTENANCE DOWNTIME OF ALL SCINET SYSTEMS

At 7:50AM, all systems were shutdown for annual cooling tower maintenance. We expect to come back up in the evening of today. Check the wiki in the late afternoon for status updates.

Tuesdays, bi-weekly, 2:30 pm – 3:30 pm

COAST-TO-COAST SEMINAR SERIES

The Coast to Coast Seminar is an hour-long presentation given on a scientific topic and is made accessible to audiences at a number of remote sites across Canada through collaboration technology. SciNet is a local seminar location for this series.

This fall, the theme is “Open Communication of Science”.

  • Oct 2: “Climate Delusions”, Dr. Mark Jaccard (Simon Fraser University)
  • Oct 16: “Disease, Aquaculture, and Pacific Salmon Management”, Dr. Rick Routledge (Simon Fraser University)
  • Oct 30: “The Role of Science in Marine Policy-Making: from Global to Local”, Dr. Jake Rice (Fisheries and Oceans Canada)
  • Nov 13: “Oil & Fish Tails: Cuts to Canada’s environment and the changing face of Metro Vancouver’s oil and gas industry”, Mr. Fin Donnelly and Mr. Kennedy Stewart (Members of Parliament)
  • Nov 27: TBA, Dr. Rob Macdonald (Fisheries and Oceans Canada)

More info at http://c2c.irmacs.sfu.ca

Thursday October 4, 10:30 am

ORGANIZATIONAL MEETING MINI-COURSE ON GPU COMPUTING

McLennan Physical Laboratories MP1318

Graphical Processing Units (GPUs) can perform certain computations tremendously faster than traditional CPU processors. Harald Pfeiffer (CITA) and Jonathan Dursi (SciNet/CITA) are offering a modular course / mini-course in GPU computing. They will introduce the students to the basics of GPU programming, with an emphasis on the practical knowledge of how to write, run, and optimize GPU-code.

The class-times will be decided in the organizational meeting. The primary audience are graduate students, but postdocs or undergraduate students are also very welcome

For more information, attend the organizational meeting on Thursday.

Wednesday October 10, 10:00 am – 12:00 noon

INTRO TO THE LINUX SHELL

Extremely useful for new users of SciNet that are not yet familiar with the Linux shell or other command-line interfaces.

For more information and sign up, see https://support.scinet.utoronto.ca/courses/?q=node/77

Wednesday October 10, 12:00 noon – 1:00 pm

SNUG MEETING W/TECHTALK: OVERVIEW OF THE NEW BLUE GENE/Q SYSTEM AT SCINET

Sign up at https://support.scinet.utoronto.ca/courses/?q=node/70

Thursday October 11, 2012, 3:00 pm (Eastern)

DEADLINE FOR 2013 COMPUTE CANADA RESOURCE ALLOCATION PROPOSALS

For more info see the Compute Canada website:

https://computecanada.ca/index.php/en/about-us/news/general-news/224-compute-canada-resource-allocation-2013-call-for-proposals-allocation-nationale-des-ressources-de-calcul-canada-demande-de-ressources

Tuesday October 23, 2:00 pm – 4:00 pm

SCINET DEVELOPER SEMINAR – THE JULIA LANGUAGE

By Michael Nolta (CITA, Toronto)

Julia is a high-level, high-performance dynamic programming language for technical computing, with syntax that is familiar to users of other technical computing environments.

Sign up at https://support.scinet.utoronto.ca/courses/?q=node/78

Wednesday November 7, 10:00 am – 11:30 am

INTRO TO SCINET

Learn what SciNet resources are available, how to compile your code and how to use the batch system, in approximately 90 minutes. Intended for new users, but experienced users may still pick up some valuable pointers.

Sign up at https://support.scinet.utoronto.ca/courses/?q=node/80

Wednesday November 7, 12:00 noon – 1:00 pm

SNUG MEETING

TechTalk: TBA (Want to present? Email support@scinet.utoronto.ca)

There will also be pizza and discussion.

Sign up at https://support.scinet.utoronto.ca/courses/?q=node/71

Friday November 9, 12:30 pm – 14:00 pm

SCINET DEVELOPER SEMINAR

By Fernando Perez, the inventor of the IPython Notebook.

Because of the lunch-hour scheduling, we will also be providing pizza!

For pizza planning purposes, please sign up at https://support.scinet.utoronto.ca/courses/?q=node/84

Wednesday November 28, 10:00 am 5:00 pm

PARALLEL DEBUGGING WITH DDT

For more information and sign up, see https://support.scinet.utoronto.ca/courses/?q=node/82

Wednesday December 12, 12:00 noon – 1:00 pm

SNUG MEETING

TechTalk: TBA (Want to present? Email support@scinet.utoronto.ca)

There will also be pizza and discussion.

Sign up at https://support.scinet.utoronto.ca/courses/?q=node/72

SYSTEM NEWS

  • Scratch usage: Users will now get emailed when they reach 90% and 95% of their allowed disk usage, or of their allowed number of files. As a safety measure, in the near future, their compute jobs will be blocked when the 95% threshold is reached.
  • GPC and HPSS: A parallel implementation of gzip called ‘pigz’ has been installed as part of the “extras” module.
  • HPSS: A new version of hsi has been installed that allows for checksums.
  • BGQ: The Blue Gene/Q has been delivered. We are in the process of setting up the software environment and will let beta-users in later this month.

ADDED TO THE WIKI

All new wiki content below is listed and linked on the main page: http://wiki.scinethpc.ca/wiki/index.php/SciNet_User_Support_Library#What.27s_New_On_The_Wiki)

  • Slides for the course: “Workflow Optimization for Large Scale BioInformatics”
  • “Intro to SciNet” slides
  • How to use checksums with hsi.
  • How to use pigz (parallel implementation of gzip) with HPSS
  • Slides of the September 2012 SNUG TechTalk “Science=Data”

WHAT ELSE HAPPENED AT SCINET IN SEPTEMBER?

  • September 12: Intro to SciNet
  • September 12: SNUG Meeting with a TechTalk on “Science=Data”
  • September 17: SciNet Developer Seminar by Kit Barton from IBM on “IBM XL compilers and optimization”
  • September 18: SciNet Developer Seminar by Mark Ebersole from NVIDIA on “OpenACC”.
  • September 25: 1-day session on “Workflow optimization for large scale bioinformatics”