2011 HPC Boot Camp: Difference between revisions

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The UAB HPC Bootcamp is being held in conjunction with the [[UAB Research Computing Day 2011]].  The HPC Bootcamp will take place on Friday September 16 at the Hill University Center Auditorium from 9:00am  to 3:30pm.
The UAB HPC Bootcamp is being held in conjunction with the [[UAB Research Computing Day 2011]].  The HPC Bootcamp will take place on Friday September 16 at the Hill University Center Auditorium from 9:00am  to 3:30pm.
The 2011 UAB HPC Boot Camp is sponsored by the Office of the Vice President for Information Technology (UAB IT), the Section on Statistical Genetics in the School of Public Health (SSG), the Center for Clinical and Translational Science (CCTS).


== Registration ==
== Registration ==
Line 6: Line 8:


== Agenda ==
== Agenda ==
8:30-9:00 Registration and Refreshments


9:00-9:05 Opening Remarks - John-Paul Robinson, UAB IT Research Computing
9:00-9:05 Opening Remarks - John-Paul Robinson, UAB IT Research Computing


9:05 - 11:00 Galaxy Introduction  
9:05 - 11:00 [[UAB_Galaxy_Workshop_Tutorial|Galaxy Introduction - Next Generation Sequencing Analysis]]


* 9:05 - 10:00 NGS genome sequencing analysis, John Ozborn, CCTS
* 9:05 - 9:20 Logging in and uploading data to Galaxy
* 10:00 - 11:00 NGS transcripome sequencing analysis (RNAseq), Curtis Hendrickson, CCTS
* 9:20 - 9:50 [[Galaxy_DNA-Seq_Tutorial|NGS genome sequencing analysis]], John Osborne, [http://www.ccts.uab.edu/pages/bmi/bmi_explore.htm CCTS]
* 9:50 - 10:30 NGS transcripome sequencing analysis (RNAseq), Curtis Hendrickson, [http://www.ccts.uab.edu/pages/bmi/bmi_explore.htm CCTS]
* 10:30 - 11:00 Galaxy Workflows & Advanced Topics


11:00-1:00 Lunch on your own
11:00-1:00 Lunch on your own
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1:00-2:00 - Research Computing Resources Session
1:00-2:00 - Research Computing Resources Session


* 1:00 - 1:20  Overview of Research Computing Rources -- Cluster on demand
* 1:00 - 1:20  Overview of Research Computing Resources -- John-Paul Robinson, UAB IT Research Computing
* 1:20 - 1:40  Hadoop overview
* 1:20 - 1:40  [http://docs.uabgrid.uab.edu/w/images/a/ae/HPCBootCamp2011-UsingGitForDevelopment.pdf Using Git for Development] -- Shantanu Pavgi, UAB IT Research Computing
* 1:40 - 2:00  Using Git for Development -- Shantanu Pavgi, UAB IT Research Computing
* 1:40 - 2:00  Hadoop on Cheaha -- John-Paul Robinson, UAB IT Research Computing


2:00-2:10 - break
2:00-2:10 - break
Line 26: Line 32:
2:10-3:20 - Developing Research Computing Solutions Session
2:10-3:20 - Developing Research Computing Solutions Session


* 2:10 - 2:30 - Scientific Python Programming and Application Performance -- Robert Cloud, SoE
* 2:10 - 2:40 - Scientific Python Programming and Application Performance -- Robert Cloud, SoE
* 2:30 - 2:50 - Example Research workflow
* 2:40 - 3:00 - [http://docs.uabgrid.uab.edu/w/images/4/4c/RestfulWebServices_091611.pdf RESTful Web Service Interfaces] -- Don Dempsey, CCTS 
* 2:50 - 3:10 - RESTful Web Programming
* 3:00 - 3:30 - [[MATLAB_workshop_2011 |MatLab for Managing Workflows]] [http://docs.uabgrid.uab.edu/wiki/File:Matlab_workflows_bootcamp.pdf PDF] -- Thomas Anthony, UAB IT Research Computing - SoE
* 3:10 - 3:30 - How-to Use MatLab DCS -- Thomas Anthony, ITRC - SoE


[[Category:RCDay2011]]
[[Category:RCDay2011]]

Latest revision as of 19:13, 6 October 2011

The UAB HPC Bootcamp is being held in conjunction with the UAB Research Computing Day 2011. The HPC Bootcamp will take place on Friday September 16 at the Hill University Center Auditorium from 9:00am to 3:30pm.

The 2011 UAB HPC Boot Camp is sponsored by the Office of the Vice President for Information Technology (UAB IT), the Section on Statistical Genetics in the School of Public Health (SSG), the Center for Clinical and Translational Science (CCTS).

Registration

Registration is requested by Wednesday September 14th to attend this event. Please register here

Agenda

8:30-9:00 Registration and Refreshments

9:00-9:05 Opening Remarks - John-Paul Robinson, UAB IT Research Computing

9:05 - 11:00 Galaxy Introduction - Next Generation Sequencing Analysis

  • 9:05 - 9:20 Logging in and uploading data to Galaxy
  • 9:20 - 9:50 NGS genome sequencing analysis, John Osborne, CCTS
  • 9:50 - 10:30 NGS transcripome sequencing analysis (RNAseq), Curtis Hendrickson, CCTS
  • 10:30 - 11:00 Galaxy Workflows & Advanced Topics

11:00-1:00 Lunch on your own

1:00-2:00 - Research Computing Resources Session

  • 1:00 - 1:20 Overview of Research Computing Resources -- John-Paul Robinson, UAB IT Research Computing
  • 1:20 - 1:40 Using Git for Development -- Shantanu Pavgi, UAB IT Research Computing
  • 1:40 - 2:00 Hadoop on Cheaha -- John-Paul Robinson, UAB IT Research Computing

2:00-2:10 - break

2:10-3:20 - Developing Research Computing Solutions Session

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