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Genepool Training and Tutorials

This is a summary page for the trainings and tutorial sessions that have been given at the JGI.  So far we have just posted presentations and talks from 2013, we will work on getting the slides from 2012.  


  • JGI-Future-of-Genepool-3-17-2017.pptx | PowerPoint file
    A quick overview of the changes coming to Genepool given by Dan Udwary on March 17, and why moving bioinformatics software to containers will be a critical part of that change.
  • Docker-for-reproducible-pipelines.pptx | PowerPoint file
    A presentation given by Tony Wildish on March 17 2017, describing NERSC's recommendations for converting JGI pipelines from the Genepool module system to more reproducible Containerized pipelines that can run on Denovo, Cori, and the cloud.
  • Google-Cloud-Training.pptx | PowerPoint file
    A hands-on workshop presented at the JGI, and at the JGI User Meeting in March 2017. Instructs the user in the use of Docker containers and virtual machines in the Google Cloud.
  • 2017-02-06-Gitlab-CI.pdf | Adobe Acrobat PDF file
    A hands-on introduction to Gitlab, a Continuous Integration platform, from Feb. 6th 2017
  • Git+Docker-Tutorial-Dec01-2016.pdf | Adobe Acrobat PDF file
    Slides from the basic intro to Git and Docker at the JGI, December 1st 2016
  • SLURMTraining-Oct13-2016.pptx | PowerPoint file
    Slides from the JGI SLURM workshop held on October 13, 2016.
  • JGItutorial-Jun2016.pdf | Adobe Acrobat PDF file
    Dan Udwary led a User Training session in June 2016, covering NERSC, the Genepool configuration, submitting and monitoring jobs, and the module system.
  • CRT-Training-Feb3-2016.pdf | Adobe Acrobat PDF file
    On 2-3-2016 Dan Udwary gave an overview of the move from OSF to CRT and contains info on how JGI staff can run jobs on Cori/Edison.
  • BLASTtutorial-dec2015.pdf | Adobe Acrobat PDF file
    Dan Udwary gave a training on using BLAST optimally on the Genepool system.